Computational methods for identifying the critical nodes in biological networks

X Liu, Z Hong, J Liu, Y Lin… - Briefings in …, 2020 - academic.oup.com
A biological network is complex. A group of critical nodes determines the quality and state of
such a network. Increasing studies have shown that diseases and biological networks are …

Comparative Expression Analysis of Stress-Inducible Candidate Genes in Response to Cold and Drought in Tea Plant [Camellia sinensis (L.) Kuntze]

LS Samarina, AV Bobrovskikh, AV Doroshkov… - Frontiers in …, 2020 - frontiersin.org
Cold and drought are two of the most severe threats affecting the growth and productivity of
the tea plant, limiting its global spread. Both stresses cause osmotic changes in the cells of …

Detecting essential proteins based on network topology, gene expression data, and gene ontology information

W Zhang, J Xu, Y Li, X Zou - IEEE/ACM transactions on …, 2016 - ieeexplore.ieee.org
The identification of essential proteins in protein-protein interaction (PPI) networks is of great
significance for understanding cellular processes. With the increasing availability of large …

Using Multi-feature Weak Consensus Model to Discover Essential Proteins

Z Hu, G Li, X Luo, J Liu, J Wu… - IEEE Transactions on …, 2025 - ieeexplore.ieee.org
Essential proteins play an essential role in cell survival and replication. Currently, more and
more computational methods are developed to identify essential proteins, which overcome …

Identification of essential protein using chemical reaction optimization and machine learning technique

M Inzamam-Ul-Hossain… - IEEE/ACM Transactions on …, 2023 - ieeexplore.ieee.org
For the survival, development, and reproduction of the organism, understanding the working
process of the cell, disease study, design drugs, etc. essential protein plays a crucial role …

Essential protein detection by random walk on weighted protein-protein interaction networks

B Xu, J Guan, Y Wang, Z Wang - IEEE/ACM Transactions on …, 2017 - ieeexplore.ieee.org
Essential proteins are critical to the development and survival of cells. Identification of
essential proteins is helpful for understanding the minimal set of required genes in a living …

A random walk-based method for detecting essential proteins by integrating the topological and biological features of PPI network

NM Ahmed, L Chen, B Li, W Liu, C Dai - Soft Computing, 2021 - Springer
The essential protein detection on protein–protein interaction (PPI) network can not only
promote the research of life science, but also have important applications in disease …

Genomic Identification and Functional Characterization of Essential Genes in Caenorhabditis elegans

Z Qin, R Johnsen, S Yu, JSC Chu… - G3: Genes, Genomes …, 2018 - academic.oup.com
Using combined genetic map**, Illumina sequencing, bioinformatics analyses, and
experimental validation, we identified 60 essential genes from 104 lethal mutations in two …

Identification of essential proteins using induced stars in protein–protein interaction networks

C Vogiatzis, MC Camur - INFORMS Journal on Computing, 2019 - pubsonline.informs.org
In this work, we propose a novel centrality metric, referred to as star centrality, which
incorporates information from the closed neighborhood of a node, rather than solely from the …

A dynamic programing approach to integrate gene expression data and network information for pathway model generation

Y Jiang, Y Liang, D Wang, D Xu, T Joshi - Bioinformatics, 2020 - academic.oup.com
Motivation As large amounts of biological data continue to be rapidly generated, a major
focus of bioinformatics research has been aimed toward integrating these data to identify …